GreeNC

Gene information

This table contains information about coordinates, assembly and annotation regarding the lncRNA-transcribing gene. In details, it shows whether this this gene transcribes any protein-coding transcript.

Gene alias / name	Chrom.	Start	End	Assembly	Species	Details
Atauschii_AET1Gv20646000 [ AET1Gv20646000]	1D	369124052	369128150	v4	Aegilops tauschii (Ensembl Plants 51)	Coding? Yes

Transcript features

This table shows how a lncRNA has been classified (high/low confidence) or whether it has been classified as pre-miRNA (go to FAQ for classification criteria). Besides, it displays the lncRNA length and sequence as well as information about the ORF, the coding potential calculated by the Coding Potential Calculator (CPC), and the folding energies calculated by RNAfold.

Transcript alias / name	Confidence	Pre-miRNA	Length	Orthologous group	Sequence	Details
Atauschii_AET1Gv20646000.1 AET1Gv20646000.1	High	No	2292	OG0024383		Get ORF Coding potential... Type: noncoding Potential: -1.113 Folding energies... MFEI: -30.284 AMFE: -0.695 GC content %: 43.586
Atauschii_AET1Gv20646000.10 AET1Gv20646000.10	High	No	984	OG0006795		Get ORF Coding potential... Type: noncoding Potential: -1.209 Folding energies... MFEI: -28.923 AMFE: -0.637 GC content %: 45.427
Atauschii_AET1Gv20646000.12 AET1Gv20646000.12	Low	No	332	OG0068808		Get ORF Coding potential... Type: noncoding Potential: -0.171 Folding energies... MFEI: -24.096 AMFE: -0.602 GC content %: 40.060
Atauschii_AET1Gv20646000.3 AET1Gv20646000.3	High	No	2072	OG0068809		Get ORF Coding potential... Type: noncoding Potential: -1.106 Folding energies... MFEI: -29.870 AMFE: -0.711 GC content %: 42.037
Atauschii_AET1Gv20646000.4 AET1Gv20646000.4	High	No	2007	OG0068810		Get ORF Coding potential... Type: noncoding Potential: -1.103 Folding energies... MFEI: -31.530 AMFE: -0.696 GC content %: 45.291
Atauschii_AET1Gv20646000.5 AET1Gv20646000.5	Low	No	1973	OG0024384		Get ORF Coding potential... Type: noncoding Potential: -0.309 Folding energies... MFEI: -30.745 AMFE: -0.682 GC content %: 45.109
Atauschii_AET1Gv20646000.6 AET1Gv20646000.6	High	No	1608	OG0068811		Get ORF Coding potential... Type: noncoding Potential: -1.279 Folding energies... MFEI: -32.201 AMFE: -0.665 GC content %: 48.445

Matches to external databases

The lncRNAs from GreeNC have been analysed against the following databases: SwissProt, miRBase, Rfam, RepBase (RepeatMasker), NONCODE, and lncRNAdb. This table displays any association with these databases.

Transcript alias	Database	Version	Hit	Evalue
Atauschii_AET1Gv20646000.12	SwissProt	2021-04-01	Q15427	5.92e-4
Atauschii_AET1Gv20646000.5	SwissProt	2021-04-01	Q09442	7.85e-4

Gene models

Transcripts can be colored as magenta (coding transcripts), green (high confidence lncRNAs), cyan (low confidence lncRNAs), or salmon (other ncRNAs).